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SuperFly: a comparative database for quantified spatio-temporal gene expression patterns in early dipteran embryos.

Damjan Cicin-Sain1, Antonio Hermoso Pulido2, Anton Crombach1

  • 1EMBL/CRG Research Unit in Systems Biology, Centre for Genomic Regulation (CRG), 08003 Barcelona, Spain Bioinformatics Core Facility, Centre for Genomic Regulation (CRG), 08003 Barcelona, Spain.

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Summary

SuperFly is a new database for gene expression data in developing flies, midges, and mosquitoes. It aids comparative studies of developmental evolution and systems biology modeling.

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Area of Science:

  • Developmental Biology
  • Genomics
  • Bioinformatics

Background:

  • Comparative analysis of gene expression is crucial for understanding developmental evolution.
  • Existing resources often lack spatio-temporal resolution or focus on limited model systems.
  • Dipteran insects offer diverse models for studying early development.

Purpose of the Study:

  • To introduce SuperFly, a relational database for quantified spatio-temporal gene expression data.
  • To support research on emerging non-drosophilid model systems in dipterans.
  • To facilitate quantitative comparative studies and systems biology modeling.

Main Methods:

  • Development of a relational database (SuperFly) for spatio-temporal expression data.
  • Inclusion of data from Drosophila melanogaster, Megaselia abdita, and Clogmia albipunctata.
  • Web interface for accessing embryo images, expression profiles, and metadata.

Main Results:

  • SuperFly contains quantified expression data for up to 9 genes and 16 time points per species.
  • The database includes 1823 embryos with high spatio-temporal resolution.
  • Data includes original images, expression profiles, boundary positions, and processing steps.

Conclusions:

  • SuperFly is a valuable resource for quantitative comparative studies of gene expression in dipterans.
  • It serves as a test set for systems biologists modeling gene networks.
  • The database advances a quantitative understanding of developmental evolution.